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Oppong-Danquah, Ernest; Miranda, Martina; Blümel, Martina; Tasdemir, Deniz (2023): Identification of bacteria isolated from the mesopelagic jellyfish Periphylla periphylla [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.959953, In: Oppong-Danquah, E et al. (2023): Isolation and untargeted metabolomics of microorganisms from the mesopelagic jellyfish Periphylla periphylla [dataset bundled publication]. PANGAEA, https://doi.org/10.1594/PANGAEA.959939

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Abstract:
Identification of 16 selected bacteria associated to the umbrella of Periphylla periphylla collected in the Irminger Sea based on sequencing of the 16S ribosomal RNA gene and BLAST against the NCBI nucleotide database. The table displays the first 3 hits from two blastn searches, one against all database entries and the second against type strains only. Nucleotide identities (%) with database hits and NCBI accession numbers assigned to the isolated bacteria are also displayed. Colonies were cultured either in marine broth, Hastings medium or Wickerham medium for comparison.
Keyword(s):
Laboratory experiment
Supplement to:
Oppong-Danquah, Ernest; Miranda, Martina; Blümel, Martina; Tasdemir, Deniz (2023): Bioactivity Profiling and Untargeted Metabolomics of Microbiota Associated with Mesopelagic Jellyfish Periphylla Periphylla. Marine Drugs, 21(2), 129, https://doi.org/10.3390/md21020129
Project(s):
Sustainable Management of Mesopelagic Resources (SUMMER)
Funding:
Horizon 2020 (H2020), grant/award no. 817806: Sustainable management of mesopelagic resources
Coverage:
Median Latitude: 63.186583 * Median Longitude: -18.894667 * South-bound Latitude: 63.157667 * West-bound Longitude: -18.896500 * North-bound Latitude: 63.215500 * East-bound Longitude: -18.892833
Date/Time Start: 2020-07-15T14:46:00 * Date/Time End: 2020-07-15T15:47:00
Minimum Elevation: -860.0 m * Maximum Elevation: -800.0 m
Event(s):
A7-2020_417 * Latitude Start: 63.215500 * Longitude Start: -18.896500 * Latitude End: 63.157667 * Longitude End: -18.892833 * Date/Time Start: 2020-07-15T14:46:00 * Date/Time End: 2020-07-15T15:47:00 * Elevation Start: -860.0 m * Elevation End: -800.0 m * Mesh size: 50 mm * Location: Nordic Seas * Campaign: IESSNS_2020 (A7-2020) * Basis: Arni Fridriksson * Method/Device: Multipurpose pelagic trawl - 832 (MULTPELT-832)
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
1 Type of studyStudy typeOppong-Danquah, Ernest
2 Source materialSource matOppong-Danquah, Ernest
3 Species, unique identificationSpecies UIDOppong-Danquah, ErnestVisual identification (VID)host
4 Species, unique identification (URI)Species UID (URI)Oppong-Danquah, ErnestVisual identification (VID)host
5 Species, unique identification (Semantic URI)Species UID (Semantic URI)Oppong-Danquah, ErnestVisual identification (VID)host
6 Treatment: culture mediumT: culture mediumOppong-Danquah, Ernest
7 Temperature, airTTT°COppong-Danquah, Ernest
8 Bacterial strainBacterial strainOppong-Danquah, Ernest
9 Accession number, geneticsAccess no genOppong-Danquah, Ernestisolate
10 Gene nameGeneOppong-Danquah, Ernest
11 Sequence lengthSeq lbpOppong-Danquah, ErnestSanger Sequencing modified after Sanger et al. (1977)isolate
12 Bacterial strainBacterial strainOppong-Danquah, ErnestBasic Local Alignment Search Tool, National Center for Biotechnology Information, Nucleotide BLAST (blastn)matches against entire database
13 IdentityIdent%Oppong-Danquah, ErnestBasic Local Alignment Search Tool, National Center for Biotechnology Information, Nucleotide BLAST (blastn)matches against entire database
14 Accession number, geneticsAccess no genOppong-Danquah, ErnestBasic Local Alignment Search Tool, National Center for Biotechnology Information, Nucleotide BLAST (blastn)matches against entire database
15 Bacterial strainBacterial strainOppong-Danquah, ErnestBasic Local Alignment Search Tool, National Center for Biotechnology Information, Nucleotide BLAST (blastn)matches against type strain only
16 IdentityIdent%Oppong-Danquah, ErnestBasic Local Alignment Search Tool, National Center for Biotechnology Information, Nucleotide BLAST (blastn)matches against type strain only
17 Accession number, geneticsAccess no genOppong-Danquah, ErnestBasic Local Alignment Search Tool, National Center for Biotechnology Information, Nucleotide BLAST (blastn)matches against type strain only
License:
Creative Commons Attribution 4.0 International (CC-BY-4.0)
Status:
Curation Level: Enhanced curation (CurationLevelC) * Processing Level: PANGAEA data processing level 3 (ProcLevel3)
Size:
720 data points

Data

Download dataset as tab-delimited text — use the following character encoding:

1 
Study type		2 
Source mat		3 
Species UID
(host, Visual identification)		4 
Species UID (URI)
(host, Visual identification)		5 
Species UID (Semantic URI)
(host, Visual identification)		6 
T: culture medium		7 
TTT [°C]		8 
Bacterial strain		9 
Access no gen
(isolate)		10 
Gene		11 
Seq l [bp]
(isolate, Sanger Sequencing mo...)		12 
Bacterial strain
(matches against entire databa...)		13 
Ident [%]
(matches against entire databa...)		14 
Access no gen
(matches against entire databa...)		15 
Bacterial strain
(matches against type strain o...)		16 
Ident [%]
(matches against type strain o...)		17 
Access no gen
(matches against type strain o...)
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU122insdc:OQ25991516S ribosomal RNA764Bizionia sp. strain SER20100.0insdc:MK660308.1Bizionia berychis strain RA3-3-1100.0insdc:NR_163629.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU122insdc:OQ25991516S ribosomal RNA764Bizionia berychis strain RA3-3-1100.0insdc:NR_163629.1Bizionia fulviae strain EM798.4insdc:NR_137258.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU122insdc:OQ25991516S ribosomal RNA764Bizionia sp. BS-22B99.9insdc:KX000020.1Bizionia paragorgiae strain KMM 602996.9insdc:NR_025827.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU123insdc:OQ25991616S ribosomal RNA728Psychrobacter sp. BM0699.6insdc:KP172202.1Psychrobacter arcticus strain 273-499.0insdc:NR_075054.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU123insdc:OQ25991616S ribosomal RNA728Psychrobacter sp. strain SXS3-299.2insdc:MG383483.1Psychrobacter glacincola DSM 1219499.0insdc:NR_042076.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU123insdc:OQ25991616S ribosomal RNA728Psychrobacter glacincola CsDWF-37799.0insdc:MT415118.1Psychrobacter cryohalolentis K598.8insdc:NR_075055.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU124insdc:OQ25991716S ribosomal RNA913Polaribacter atrinae strain BM-599.9insdc:MH550132.1Polaribacter atrinae strain WP2599.9insdc:NR_133820.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU124insdc:OQ25991716S ribosomal RNA913Polaribacter atrinae strain WP2599.9insdc:NR_133820.1Polaribacter sejongensis KOPRI 2116098.8insdc:NR_109324.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU124insdc:OQ25991716S ribosomal RNA913Polaribacter sp. KJF13-499.1insdc:JQ800223.1Polaribacter staleyi strain 10Alg 13998.0insdc:NR_159336.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU125insdc:OQ25991816S ribosomal RNA849Leifsonia sp. W3100.0insdc:FJ424506.1Salinibacterium amurskyense KMM 367399.4insdc:NR_041932.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU125insdc:OQ25991816S ribosomal RNA849Leifsonia sp. C6100.0insdc:FJ539111.1Salinibacterium amurskyense KCTC 993199.4insdc:MT759917.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU125insdc:OQ25991816S ribosomal RNA849Salinibacterium sp. strain 166499.9insdc:FJ539111.1Leifsonia rubra strain CMS 76R97.6insdc:MW228823.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU126insdc:OQ25991916S ribosomal RNA770Shewanella sp. HM13100.0insdc:LC461000.1Shewanella livingstonensis strain LMG 19866100.0insdc:CP034015.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU126insdc:OQ25991916S ribosomal RNA770Shewanella sp. strain Arc7-138100.0insdc:MN784327.1Shewanella vesiculosa strain M7100.0insdc:NR_042710.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU126insdc:OQ25991916S ribosomal RNA770Shewanella livingstonensis LMG 19866100.0insdc:MK131328.1Shewanella livingstonensis strain NF2299.9insdc:NR_025443.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU127insdc:OQ25992016S ribosomal RNA996Pseudoalteromonas sp. strain L13100.0insdc:MN889155.1Pseudoalteromonas tetraodonis strain GFC100.0insdc:CP011041.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU127insdc:OQ25992016S ribosomal RNA996Pseudoalteromonas sp. strain H34100.0insdc:MN889141.1Pseudoalteromonas issachenkonii KCTC 1295899.9insdc:CP013350.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU127insdc:OQ25992016S ribosomal RNA996Pseudoalteromonas undina strain W14100.0insdc:MN746144.1Pseudoalteromonas spiralis strain Te-2-299.8insdc:NR_114801.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU128insdc:OQ25992116S ribosomal RNA704Psychrobacter sp. strain UP100.0insdc:MN420817.1Psychrobacter fjordensis strain BSw21516B99.3insdc:NR_148330.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU128insdc:OQ25992116S ribosomal RNA704Psychrobacter fozii strain D4037100.0insdc:FJ161263.1Psychrobacter fozii strain NF2399.3insdc:NR_025531.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU128insdc:OQ25992116S ribosomal RNA704Psychrobacter sp. KJF3-3799.9insdc:JQ800055.1Psychrobacter aquimaris strain SW-21099.0insdc:NR_113805.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Hastings6SU129insdc:OQ25992216S ribosomal RNA908Vibrio sp. strain Arc7-210100.0insdc:MN784332.1Vibrio kanaloae strain LMG 2053999.9insdc:NR_042468.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Hastings6SU129insdc:OQ25992216S ribosomal RNA908Vibrio alginolyticus strain K08M4100.0insdc:CP017916.1Vibrio lentus strain CIP 10716699.9insdc:NR_114982.1
laboratory experimentOuter umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Hastings6SU129insdc:OQ25992216S ribosomal RNA908Vibrio atlanticus strain LGP32100.0insdc:FM954972.2Vibrio atlanticus strain VB 11.1199.7insdc:NR_116067.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU134insdc:OQ25992316S ribosomal RNA985Polaribacter sp. NF3-1198.5insdc:FJ196052.1Polaribacter vadi strain LPB000398.0insdc:NR_156039.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU134insdc:OQ25992316S ribosomal RNA985Polaribacter sp. BSw2168398.4insdc:JQ069958.1Polaribacter undariae strain W-BA798.0insdc:KM458974.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU134insdc:OQ25992316S ribosomal RNA985Polaribacter glomeratus strain KOPRI_2222998.4insdc:EU000227.1Polaribacter sejongensis strain KOPRI 2116098.0insdc:NR_109324.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU135insdc:OQ25992416S ribosomal RNA765Pseudoalteromonas neustonica strain CeD-1100.0insdc:MN220612.1Pseudoalteromonas neustonica PAMC 2842599.0insdc:NR_151996.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU135insdc:OQ25992416S ribosomal RNA765Pseudoalteromonas neustonica SJOD-M-26100.0insdc:MK955337.1Pseudoalteromonas prydzensis MB8-1198.7insdc:NR_044803.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU135insdc:OQ25992416S ribosomal RNA765Pseudoalteromonas sp. strain DZ-01-10-aga100.0insdc:MK577318.1Pseudoalteromonas mariniglutinosa KMM 363597.9insdc:NR_028992.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU136insdc:OQ25992516S ribosomal RNA834Vibrio splendidus strain BST398100.0insdc:CP031055.1Vibrio lentus strain CIP 107166100.0insdc:NR_114982.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU136insdc:OQ25992516S ribosomal RNA834Vibrio sp. strain NFH.MB010100.0insdc:MG788349.1Vibrio lentus strain 4OM4T99.9insdc:NR_028926.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU136insdc:OQ25992516S ribosomal RNA834Vibrio sp. hMe27-21100.0insdc:KX453258.1Vibrio kanaloae strain LMG 2053999.8insdc:NR_042468.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU137insdc:OQ25992616S ribosomal RNA757Psychrobacter sp. strain BH36100.0insdc:MN049674.1Psychrobacter nivimaris strain 88/2-7100.0insdc:NR_028948.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU137insdc:OQ25992616S ribosomal RNA757Psychrobacter sp. strain GS3100.0insdc:MN421797.1Psychrobacter adeliensis strain DSM 1533399.7insdc:NR_117632.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Marine Broth6SU137insdc:OQ25992616S ribosomal RNA757Psychrobacter nivimaris strain 20_KNBR_Sed_R2100.0insdc:MN080178.1Psychrobacter adeliensis strain SJ 1499.7insdc:NR_104882.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Hastings6SU139insdc:OQ25992716S ribosomal RNA768AliiVibrio sp. strain EL58100.0insdc:MF461376.1AliiVibrio logei, strain 58499.6insdc:LR813682.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Hastings6SU139insdc:OQ25992716S ribosomal RNA768AliiVibrio sp. H1309/4.1100.0insdc:LN871555.1AliiVibrio salmonicida strain NCIMB 226299.6insdc:NR_116259.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Hastings6SU139insdc:OQ25992716S ribosomal RNA768AliiVibrio fischeri, strain: CG2100.0insdc:AB819695.1AliiVibrio logei strain NCIMB 225299.6insdc:NR_116258.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Hastings6SU140insdc:OQ25992816S ribosomal RNA756Pseudoalteromonas sp. strain W11100.0insdc:MN889233.1Pseudoalteromonas arctica A 37-1-2100.0insdc:CP011026.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Hastings6SU140insdc:OQ25992816S ribosomal RNA756Pseudoalteromonas sp. strain S49100.0insdc:MN889221.1Pseudoalteromonas nigrifaciens NBRC 103036100.0insdc:NR_114188.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Hastings6SU140insdc:OQ25992816S ribosomal RNA756Pseudoalteromonas nigrifaciens strain CeD-2100.0insdc:MN220613.1Pseudoalteromonas paragorgicola KMM 3548100.0insdc:NR_025654.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Wickerham6SU143insdc:OQ25992916S ribosomal RNA1003Psychrobacter sp. P11G5100.0insdc:CP012533.1Psychrobacter adeliensis strain DSM 1533398.8insdc:NR_117634.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Wickerham6SU143insdc:OQ25992916S ribosomal RNA1003Psychrobacter glacincola: NBRC 101053100.0insdc:AB681354.1Psychrobacter glacincola strain DSM 1219498.6insdc:NR_042076.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Wickerham6SU143insdc:OQ25992916S ribosomal RNA1003Psychrobacter alimentarius strain 1.2799.8insdc:KX417122.1Psychrobacter namhaensis strain SW-24298.7insdc:NR_043141.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Wickerham6SU147insdc:OQ25993016S ribosomal RNA835Shewanella sp. HM13100.0insdc:LC461000.1Shewanella livingstonensis strain LMG 19866100.0insdc:CP034015.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Wickerham6SU147insdc:OQ25993016S ribosomal RNA835Shewanella livingstonensis LMG 19866100.0insdc:MK131328.1Shewanella vesiculosa strain M7100.0insdc:NR_042710.1
laboratory experimentInner umbrella of Periphylla periphyllaPeriphylla periphyllamarinespecies.orgurn:lsid:marinespecies.org:taxname:135294Wickerham6SU147insdc:OQ25993016S ribosomal RNA835Shewanella sp. H2-63100.0insdc:KM979184.1Shewanella livingstonensis strain NF2299.9insdc:NR_025443.1